{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,7]],"date-time":"2026-01-07T23:44:48Z","timestamp":1767829488253,"version":"3.49.0"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"24","license":[{"start":{"date-parts":[[2017,8,17]],"date-time":"2017-08-17T00:00:00Z","timestamp":1502928000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004837","name":"MICINN","doi-asserted-by":"publisher","award":["MTM2015-68140-R"],"award-info":[{"award-number":["MTM2015-68140-R"]}],"id":[{"id":"10.13039\/501100004837","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,12,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Psychiatric disorders have a great impact on morbidity and mortality. Genotype\u2013phenotype resources for psychiatric diseases are key to enable the translation of research findings to a better care of patients. PsyGeNET is a knowledge resource on psychiatric diseases and their genes, developed by text mining and curated by domain experts.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We present psygenet2r, an R package that contains a variety of functions for leveraging PsyGeNET database and facilitating its analysis and interpretation. The package offers different types of queries to the database along with variety of analysis and visualization tools, including the study of the anatomical structures in which the genes are expressed and gaining insight of gene\u2018s molecular function. Psygenet2r is especially suited for network medicine analysis of psychiatric disorders.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The package is implemented in R and is available under MIT license from Bioconductor (http:\/\/bioconductor.org\/packages\/release\/bioc\/html\/psygenet2r.html).<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btx506","type":"journal-article","created":{"date-parts":[[2017,8,9]],"date-time":"2017-08-09T19:13:47Z","timestamp":1502306027000},"page":"4004-4006","source":"Crossref","is-referenced-by-count":9,"title":["psygenet2r: a R\/Bioconductor package for the analysis of psychiatric disease genes"],"prefix":"10.1093","volume":"33","author":[{"given":"Alba","family":"Guti\u00e9rrez-Sacrist\u00e1n","sequence":"first","affiliation":[{"name":"Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain"},{"name":"Department of Experimental and Health Sciences (DCEXS), Universitat Pompeu Fabra (UPF), Barcelona, Spain"}]},{"given":"Carles","family":"Hern\u00e1ndez-Ferrer","sequence":"additional","affiliation":[{"name":"Department of Experimental and Health Sciences (DCEXS), Universitat Pompeu Fabra (UPF), Barcelona, Spain"},{"name":"ISGlobal, Centre for Research in Environmental Epidemiology (CREAL), Barcelona, Spain"},{"name":"CIBER Epidemiolog\u00eda y Salud P\u00fablica (CIBERESP), Barcelona, Spain"}]},{"given":"Juan R","family":"Gonz\u00e1lez","sequence":"additional","affiliation":[{"name":"Department of Experimental and Health Sciences (DCEXS), Universitat Pompeu Fabra (UPF), Barcelona, Spain"},{"name":"ISGlobal, Centre for Research in Environmental Epidemiology (CREAL), Barcelona, Spain"},{"name":"CIBER Epidemiolog\u00eda y Salud P\u00fablica (CIBERESP), Barcelona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9383-528X","authenticated-orcid":false,"given":"Laura I","family":"Furlong","sequence":"additional","affiliation":[{"name":"Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain"},{"name":"Department of Experimental and Health Sciences (DCEXS), Universitat Pompeu Fabra (UPF), Barcelona, Spain"}]}],"member":"286","published-online":{"date-parts":[[2017,8,17]]},"reference":[{"key":"2023020207505730200_btx506-B1","doi-asserted-by":"crossref","first-page":"124","DOI":"10.1007\/978-3-540-69828-9_12","volume-title":"Data Integration in the Life Sciences","author":"Bastian","year":"2008"},{"key":"2023020207505730200_btx506-B2","doi-asserted-by":"crossref","first-page":"55","DOI":"10.1186\/s12859-015-0472-9","article-title":"Extraction of relations between genes and diseases from text and large-scale data analysis: implications for translational research","volume":"16","author":"Bravo","year":"2015","journal-title":"BMC Bioinformatics"},{"key":"2023020207505730200_btx506-B3","doi-asserted-by":"crossref","first-page":"3075","DOI":"10.1093\/bioinformatics\/btv301","article-title":"PsyGeNET: a knowledge platform on psychiatric disorders and their genes","volume":"31","author":"Guti\u00e9rrez-Sacrist\u00e1n","year":"2015","journal-title":"Bioinformatics"},{"key":"2023020207505730200_btx506-B4","doi-asserted-by":"crossref","first-page":"D833","DOI":"10.1093\/database\/bax043","article-title":"Text mining and expert curation to develop a database on psychiatric diseases and their genes","volume":"2017","author":"Guti\u00e9rrez-Sacrist\u00e1n","year":"2017","journal-title":"Database"},{"key":"2023020207505730200_btx506-B5","doi-asserted-by":"crossref","first-page":"2748.","DOI":"10.12688\/f1000research.9973.1","article-title":"BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests","volume":"5","author":"Komljenovic","year":"2016","journal-title":"F1000Research"},{"key":"2023020207505730200_btx506-B6","doi-asserted-by":"crossref","first-page":"D833","DOI":"10.1093\/nar\/gkw943","article-title":"DisGeNET: a comprehensive platform integrating information on human disease-associated genes and variants","volume":"45","author":"Pi\u00f1ero","year":"2017","journal-title":"Nucleic Acids Res"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/33\/24\/4004\/49042065\/bioinformatics_33_24_4004.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/33\/24\/4004\/49042065\/bioinformatics_33_24_4004.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T07:52:26Z","timestamp":1675324346000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/33\/24\/4004\/4083576"}},"subtitle":[],"editor":[{"given":"John","family":"Hancock","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2017,8,17]]},"references-count":6,"journal-issue":{"issue":"24","published-print":{"date-parts":[[2017,12,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btx506","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2017,12,15]]},"published":{"date-parts":[[2017,8,17]]}}}